ReviewBMB reports2025
Recent advances in single-cell bioinformatics for inferring higher-order chromatin contact maps.
Review in BMB reports, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
1 citing paper in PubMed.
- 3D chromatin architecture in cancer: mechanisms of dysregulation and emerging therapeutic strategies.Experimental & molecular medicine · 2026Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
DNA, a large molecule located in the nucleus, carries essential genetic information, including gene loci and cis-regulatory elements. Despite its extensive length, DNA is compactly stored within the limited space of the nucleus due to its hierarchical three-dimensional (3D) organization. In this structure, DNA is organized into territories known as topologically associated domains (TADs). Within each TAD, numerous chromatin loops link promoters and enhancers across the genome. These loops and the interactions between promoters and enhancers are dynamically regulated, thereby controlling gene transcription activities. With the rapid advancements in single-cell genomics technologies, TAD boundaries and chromatin loops can now be observed at the level of individual cells, allowing researchers to explore cellular heterogeneity in tissues. This review will summarize the state-of-the-art bioinformatics methods recently developed to analyze single-cell Hi-C and epigenomics datasets, which infer higher-order chromatin interactions within the 3D genome. Additionally, we will discuss the biological applications of these tools and future directions for comprehensively investigating epigenomic heterogeneity across different species, developmental stages, and disease states. [BMB Reports 2025; 58(12): 485-493].
Indexed as
Identifiers
40916639PMC12753332What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.